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Metatranscriptomic analysis to define the Secrebiome, and 16S rRNA profiling of the gut microbiome in obesity and metabolic syndrome of Mexican children.
Microbial Cell Factories ( IF 6.4 ) Pub Date : 2020-03-06 , DOI: 10.1186/s12934-020-01319-y
Luigui Gallardo-Becerra 1 , Fernanda Cornejo-Granados 1 , Rodrigo García-López 1 , Alejandra Valdez-Lara 1 , Shirley Bikel 1 , Samuel Canizales-Quinteros 2 , Blanca E López-Contreras 2 , Alfredo Mendoza-Vargas 3 , Henrik Nielsen 4 , Adrián Ochoa-Leyva 1
Affiliation  

BACKGROUND In the last decade, increasing evidence has shown that changes in human gut microbiota are associated with diseases, such as obesity. The excreted/secreted proteins (secretome) of the gut microbiota affect the microbial composition, altering its colonization and persistence. Furthermore, it influences microbiota-host interactions by triggering inflammatory reactions and modulating the host's immune response. The metatranscriptome is essential to elucidate which genes are expressed under diseases. In this regard, little is known about the expressed secretome in the microbiome. Here, we use a metatranscriptomic approach to delineate the secretome of the gut microbiome of Mexican children with normal weight (NW) obesity (O) and obesity with metabolic syndrome (OMS). Additionally, we performed the 16S rRNA profiling of the gut microbiota. RESULTS Out of the 115,712 metatranscriptome genes that codified for proteins, 30,024 (26%) were predicted to be secreted, constituting the Secrebiome of the gut microbiome. The 16S profiling confirmed an increased abundance in Firmicutes and decreased in Bacteroidetes in the obesity groups, and a significantly higher richness and diversity than the normal weight group. We found novel biomarkers for obesity with metabolic syndrome such as increased Coriobacteraceae, Collinsela, and Collinsella aerofaciens; Erysipelotrichaceae, Catenibacterium and Catenibacterium sp., and decreased Parabacteroides distasonis, which correlated with clinical and anthropometric parameters associated to obesity and metabolic syndrome. Related to the Secrebiome, 16 genes, homologous to F. prausniitzi, were overexpressed for the obese and 15 genes homologous to Bacteroides, were overexpressed in the obesity with metabolic syndrome. Furthermore, a significant enrichment of CAZy enzymes was found in the Secrebiome. Additionally, significant differences in the antigenic density of the Secrebiome were found between normal weight and obesity groups. CONCLUSIONS These findings show, for the first time, the role of the Secrebiome in the functional human-microbiota interaction. Our results highlight the importance of metatranscriptomics to provide novel information about the gut microbiome's functions that could help us understand the impact of the Secrebiome on the homeostasis of its human host. Furthermore, the metatranscriptome and 16S profiling confirmed the importance of treating obesity and obesity with metabolic syndrome as separate conditions to better understand the interplay between microbiome and disease.

中文翻译:

进行转录组分析以定义墨西哥儿童肥胖症和代谢综合征肠道微生物组的菌群和16S rRNA谱。

背景技术在过去的十年中,越来越多的证据表明,人类肠道菌群的变化与诸如肥胖症的疾病有关。肠道菌群的分泌/分泌蛋白(secretome)影响微生物组成,改变其定殖和持久性。此外,它通过触发炎症反应和调节宿主的免疫反应来影响微生物群与宿主的相互作用。转录组对于阐明哪些基因在疾病中表达至关重要。在这方面,关于微生物组中表达的分泌组的了解甚少。在这里,我们使用转录组学方法来描述体重正常(NW)肥胖(O)和代谢综合征肥胖(OMS)的墨西哥儿童肠道微生物组的分泌组。另外,我们对肠道菌群进行了16S rRNA分析。结果在编码蛋白质的115,712个超转录组基因中,预计有30,024个(26%)被分泌出来,构成肠道微生物组的Secrebiome。16S分析证实,肥胖组的纤毛虫数量增加,拟杆菌属的含量降低,并且其丰富度和多样性明显高于正常体重组。我们发现了患有代谢综合征的肥胖症的新型生物标志物,例如Coriobacteraceae,Collinsela和Collinsella aerofaciens增多。刺梨科,连孢杆菌属和连孢杆菌属,以及副细菌杆菌分布减少,这与肥胖症和代谢综合征相关的临床和人体测量学参数有关。与Secrebiomeome有关,与F. prausniitzi同源的16个基因,肥胖的人过度表达,与拟杆菌属同源的15个基因在代谢综合征的肥胖中过度表达。此外,在保密组中发现了显着的CAZy酶富集。此外,正常体重组和肥胖组之间的秘密组的抗原密度存在显着差异。结论这些发现首次显示了Secrebiome在功能性人-菌群相互作用中的作用。我们的结果强调了转录组学在提供有关肠道微生物组功能的新颖信息方面的重要性,这些信息可以帮助我们了解Secrebiome对人类宿主体内稳态的影响。此外,
更新日期:2020-04-22
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